Evidence map›Paper›PMID 24205856›Full record

ArticleBiochemistry2013

Some ligands enhance the efflux of other ligands by the Escherichia coli multidrug pump AcrB.

Alfred D Kinana, Attilio V Vargiu, Hiroshi Nikaido

Abstract read
In one paragraph

Article in Biochemistry, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.

0numbers the graph read from it
0cells of the map it votes in
24citing papers in PubMed
1.9field-weighted citation impact, top 14% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

24 citing papers in PubMed, 46 citations in OpenAlex.

  1. Article
  2. Review
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  4. Article
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  6. Article
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  9. Article
  10. Article
  11. Discovery of multidrug efflux pump inhibitors with a novel chemical scaffold.Biochimica et biophysica acta. General subjects · 2020
    Article
  12. Article
  13. Review
  14. Article
  15. Review
  16. Aminoacyl β-naphthylamides as substrates and modulators of AcrB multidrug efflux pump.Proceedings of the National Academy of Sciences of the United States of America · 2016
    Article
  17. Article
  18. Review
  19. AcrB drug-binding pocket substitution confers clinically relevant resistance and altered substrate specificity.Proceedings of the National Academy of Sciences of the United States of America · 2015
    Article
  20. Review
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

3 authors at 2 institutions in 2 countries.

Alfred D KinanaDepartment of Molecular and Cell Biology, University of California , Berkeley California 94720, United States.
Attilio V Vargiu
Hiroshi Nikaido
University of California, Berkeley · USUniversity of Cagliari · IT

Funding

BIOCHEMISTRY OF BACTERIAL CELL MEMBRANESR01AI009644 · NIAID · UNIVERSITY OF CALIFORNIA BERKELEY · PI NIKAIDO, HIROSHI · 1985 to 2015
$9.7M
BIOCHEMISTRY OF BACTERIAL CELL MEMBRANESR37AI009644 · NIAID · UNIVERSITY OF CALIFORNIA BERKELEY · PI NIKAIDO, HIROSHI · 1991 to 2000
$467k
NIAID NIH HHS AI-009644NIAID NIH HHS R01 AI009644NIAID NIH HHS R37 AI009644
6 · The paper itself

Abstract

By measuring quantitatively the active efflux of cephalosporins by the RND (resistance-nodulation-division) family efflux pump AcrB in intact cells of Escherichia coli, we found that the simultaneous presence of another substrate, such as chloramphenicol, benzene, cyclohexane, or Arg β-naphthilamide, significantly enhanced the extrusion of cephalosporins. The stimulation occurred also in a strain expressing the covalently linked trimer of AcrB, and thus cannot be ascribed to the enhanced assembly of the trimer from AcrB monomers. When Val139 of AcrB was changed into Phe, the stimulation by benzene was found to occur at much lower concentration of the solvent. A plausible explanation of these observations is that the AcrB pump is constructed to pump out very rapidly the solvent or chloramphenicol molecules, and thus the efflux of cephalosporins, which presumably bind to a different subsite within the large binding pocket of AcrB, can become facilitated. Computer simulations of ligand binding to AcrB, both by docking and by molecular dynamics simulations, produced results supporting and extending this hypothesis. Benzene and the cephalosporin nitrocefin can bind simultaneously to the distal binding pocket of AcrB, both in the wild type and in the V139F variant. Interestingly, while the binding position and strength of benzene are almost unaffected by the presence of nitrocefin, this latter substrate is significantly displaced toward the exit gate in both wild type and mutant transporter in the presence of benzene. Additionally, the cephalosporin efflux may be enhanced by the binding of solvents (sometimes to the cephalosporin-free protomer), which could accelerate AcrB conformational changes necessary for substrate extrusion.

Indexed as

ArginineATP-Binding Cassette, Sub-Family C ProteinsBenzeneCefamandoleCephalosporinsChloramphenicolEscherichia coliEscherichia coli ProteinsKineticsLigandsMinocyclineMolecular Docking SimulationMolecular Dynamics SimulationProtein ConformationProtein MultimerizationThermodynamicsAcrB protein, E coliArgininearginine beta-naphthylamideATP-Binding Cassette, Sub-Family C ProteinsBenzeneCefamandoleCephalosporinsChloramphenicolEscherichia coli ProteinsLigandsMinocyclinenitrocefin

Identifiers

PMID24205856
PMCPMC3951271
OpenAlexW2328752440

What OpenQuestion holds

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Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.